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Gonzalez-Velasco, Oscar, De Las Rivas, Javier, Lacal, Jesus, (2019) ' Proteomic and Transcriptomic Profiling Identifies Early Developmentally Regulated Proteins in Dictyostelium Discoideum. ' Cells 8
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Abstract:Cyclic AMP acts as a secondary messenger involving different cellular functions in eukaryotes. Here, proteomic and transcriptomic profiling has been combined to identify novel early developmentally regulated proteins in eukaryote cells. These proteomic and transcriptomic experiments were performed in Dictyostelium discoideum given the unique advantages that this organism offers as a eukaryotic model for cell motility and as a nonmammalian model of human disease. By comparing whole-cell proteome analysis of developed (cAMP-pulsed) wild-type AX2 cells and an independent transcriptomic analysis of developed wild-type AX4 cells, our results show that up to 70% of the identified proteins overlap in the two independent studies. Among them, we have found 26 proteins previously related to cAMP signaling and identified 110 novel proteins involved in calcium signaling, adhesion, actin cytoskeleton, the ubiquitin-proteasome pathway, metabolism, and proteins that previously lacked any annotation. Our study validates previous findings, mostly for the canonical cAMP-pathway, and also generates further insight into the complexity of the transcriptomic changes during early development. This article also compares proteomic data between parental and cells lacking glkA, a GSK-3 kinase implicated in substrate adhesion and chemotaxis in Dictyostelium. This analysis reveals a set of proteins that show differences in expression in the two strains as well as overlapping protein level changes independent of GlkA.
Status: epublish Type: Journal article Source: PUBMED PubMed ID: 31581556
 
Genes addressed in this paper
D2B DDB_G0267786 DDB_G0267848 DDB_G0268102 DDB_G0268264 DDB_G0268492 DDB_G0268810 DDB_G0268850
Topics in this paper
Transcriptional Regulation
X

X
X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation
X

X
X
Regulated By X
X X
X
X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0269410 DDB_G0269418 DDB_G0269628 DDB_G0269740 DDB_G0270034 DDB_G0270088 DDB_G0270358 DDB_G0271272
Topics in this paper
Transcriptional Regulation X

X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X

X
X X X
Regulated By
X X
X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0271358 DDB_G0271886 DDB_G0272094 DDB_G0272785 DDB_G0273079 DDB_G0274203 DDB_G0274291 DDB_G0274407
Topics in this paper
Transcriptional Regulation X

X X
X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X

X X
X X
Regulated By
X X

X

Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0274461 DDB_G0274657 DDB_G0275311 DDB_G0275359 DDB_G0275673 DDB_G0276503 DDB_G0277009 DDB_G0277011
Topics in this paper
Transcriptional Regulation X X X X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X
X X X
Regulated By



X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0277025 DDB_G0278699 DDB_G0279611 DDB_G0279681 DDB_G0280051 DDB_G0280211 DDB_G0280471 DDB_G0280759
Topics in this paper
Transcriptional Regulation X
X X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X
X X
X X X
Regulated By
X

X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0280997 DDB_G0281049 DDB_G0281601 DDB_G0281861 DDB_G0281925 DDB_G0282201 DDB_G0282433 DDB_G0282815
Topics in this paper
Transcriptional Regulation
X X
X

X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation
X X
X

X
Regulated By X

X
X X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0283305 DDB_G0283311 DDB_G0283645 DDB_G0284079 DDB_G0284547 DDB_G0285525 DDB_G0285545 DDB_G0286231
Topics in this paper
Transcriptional Regulation X X X

X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X

X X X
Regulated By


X X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0286673 DDB_G0286727 DDB_G0286761 DDB_G0287195 DDB_G0288563 DDB_G0288591 DDB_G0288757 DDB_G0289027
Topics in this paper
Transcriptional Regulation X X X
X

X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X
X

X
Regulated By


X
X X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0289795 DDB_G0289945 DDB_G0290147 DDB_G0290219 DDB_G0290371 DDB_G0290401 DDB_G0290503 DDB_G0290575
Topics in this paper
Transcriptional Regulation
X X X X X
X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation
X X X X X
X
Regulated By X




X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0291029 DDB_G0291336 DDB_G0291782 DDB_G0292248 DDB_G0292574 DDB_G0293034 DDB_G0293244 DDB_G0293366
Topics in this paper
Transcriptional Regulation X
X X
X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X
X X
X X
Regulated By
X

X

X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
DDB_G0293708 DDB_G0294597 DDB_G0348183 abcA2 abcG17-1 abcG17-2 abnA acaA
Topics in this paper
Transcriptional Regulation X X
X

X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X
X

X X
Regulated By

X
X X

Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
acly adrm1-1 aifC ancA aprA bkdC cad2 cbp2
Topics in this paper
Transcriptional Regulation X X X X X X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X X X X X
Regulated By







Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
cbpD1 cbpE cbpG cbpI cdcD cdk5 cluA cmfB
Topics in this paper
Transcriptional Regulation X X X X X X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X X X X X
Regulated By







Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
cpiB cpsf3 cryS csaA csbC ctnnA cyc1 cyp524A1
Topics in this paper
Transcriptional Regulation X
X X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X
X X
X X X
Regulated By
X

X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
dcd1A dus1l erkA erkB fcsA fdfT gatB gefA
Topics in this paper
Transcriptional Regulation X X X X X X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X X X X X
Regulated By







Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
gfm1 gghA gip1 glkA gluA glud1 gpaB gpaH
Topics in this paper
Transcriptional Regulation X
X
X X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role


X



Mutants/Phenotypes


X



Translational Regulation X
X
X X X X
Regulated By
X





Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
grwd1 idhA idhM kil2 lipA lyrm4 lyrm7 mcfF
Topics in this paper
Transcriptional Regulation X X X X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X
X X X
Regulated By



X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
mhsp70 mrpl15 nfaA nipsnap nog1 nup53 oatA oxaB
Topics in this paper
Transcriptional Regulation X X X X X
X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X X
X
Regulated By




X
X
Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
pdsA piaA pitrm1 pks16 pks45 proA prtB psiI
Topics in this paper
Transcriptional Regulation
X X X
X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation
X X X
X X X
Regulated By X


X


Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
psmA1 psmA3 psmC3 psmD3 ranB rhgA rmd1 scdB-1
Topics in this paper
Transcriptional Regulation X X X X X X X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X X X X X X X X
Regulated By







Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
smtA tmem33 tom70 trafD trafK-1 trafK-2 trxC tsfm
Topics in this paper
Transcriptional Regulation X
X X

X X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation X
X X

X X
Regulated By
X

X X

Development/Morphogenesis X X X X X X X X


Genes addressed in this paper
ublcp1-2 ubpA uduD1 uduD2 uduF ufd1 vps28 yod1
Topics in this paper
Transcriptional Regulation
X X
X X
X
Genome-wide Analysis X X X X X X X X
Regulatory Role







Mutants/Phenotypes







Translational Regulation
X X
X X
X
Regulated By X

X

X
Development/Morphogenesis X X X X X X X X